noone@mail.com Analysis of Dieting study 16S data % Fri Sep 7 05:46:18 2018

(1.4.1.4.2.1.21) Plots of Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'.

Plots are shown with relation to various combinations of meta data variables and in different graphical representations. Lots of plots here.

(1.4.1.4.2.1.21.2) Iterating over all combinations of grouping variables
(1.4.1.4.2.1.21.2.1) Entire pool of samples
(1.4.1.4.2.1.21.2.2) Iterating over Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. profile sorting order
(1.4.1.4.2.1.21.2.2.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. profile sorting order: GeneSelector paired test ranking
(1.4.1.4.2.1.21.2.2.2) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.4.1.4.2.1.21.2.2.2.1) faceted plots. Iterating over orientation and, optionally, scaling
(1.4.1.4.2.1.21.2.2.2.1.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.4.1.4.2.1.21.2.2.2.1.1.0) Table 337. Data table used for plots. Data for all pooled samples. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.4.1.4.2.1.21.2.2.2.1.1.0-32338d8cb17.1.4.1.4.2.1.21.2.2.csv

.record.id feature l2fc
SB11.before.diet N_0 -0.491092
SB16.before.diet N_0 0.126664
SB18.before.diet N_0 -0.718013
SB28.before.diet N_0 -0.593858
SB29.before.diet N_0 2.027255
SB34.before.diet N_0 0.123281
SB36.before.diet N_0 0.121354
SB39.before.diet N_0 0.034926
SB4.before.diet N_0 0.436603
SB41.before.diet N_0 0.049114
SB43.before.diet N_0 -0.232318
SB44.before.diet N_0 -0.477673
SB5.before.diet N_0 0.171616
SB9.before.diet N_0 0.885391
SB11.before.diet N_0.25 -0.634338
SB16.before.diet N_0.25 0.183082
SB18.before.diet N_0.25 -0.959796
SB28.before.diet N_0.25 -0.682825
SB29.before.diet N_0.25 2.387025
SB34.before.diet N_0.25 0.159472
SB36.before.diet N_0.25 0.176759
SB39.before.diet N_0.25 0.057172
SB4.before.diet N_0.25 0.429689
SB41.before.diet N_0.25 0.049882
SB43.before.diet N_0.25 -0.196822
SB44.before.diet N_0.25 -0.637641
SB5.before.diet N_0.25 0.231494
SB9.before.diet N_0.25 1.058680
SB11.before.diet N_0.5 -0.825806
SB16.before.diet N_0.5 0.246380
SB18.before.diet N_0.5 -1.262687
SB28.before.diet N_0.5 -0.609046
SB29.before.diet N_0.5 2.573790
SB34.before.diet N_0.5 0.200284
SB36.before.diet N_0.5 0.282796
SB39.before.diet N_0.5 0.080017
SB4.before.diet N_0.5 0.357019
SB41.before.diet N_0.5 0.036460
SB43.before.diet N_0.5 -0.126778
SB44.before.diet N_0.5 -0.813559
SB5.before.diet N_0.5 0.315200
SB9.before.diet N_0.5 1.167670
SB11.before.diet N_1 -1.259650
SB16.before.diet N_1 0.336035
SB18.before.diet N_1 -1.616767
SB28.before.diet N_1 0.132452
SB29.before.diet N_1 2.164357
SB34.before.diet N_1 0.241656
SB36.before.diet N_1 0.575047
SB39.before.diet N_1 0.088648
SB4.before.diet N_1 0.161694
SB41.before.diet N_1 -0.034658
SB43.before.diet N_1 0.039783
SB44.before.diet N_1 -0.897483
SB5.before.diet N_1 0.526700
SB9.before.diet N_1 0.939827
SB11.before.diet N_2 -1.598588
SB16.before.diet N_2 0.434624
SB18.before.diet N_2 -1.100064
SB28.before.diet N_2 0.722091
SB29.before.diet N_2 1.495731
SB34.before.diet N_2 0.200256
SB36.before.diet N_2 0.775051
SB39.before.diet N_2 0.047565
SB4.before.diet N_2 0.212547
SB41.before.diet N_2 -0.115683
SB43.before.diet N_2 0.110412
SB44.before.diet N_2 -0.302859
SB5.before.diet N_2 0.856968
SB9.before.diet N_2 0.469765
SB11.before.diet N_4 -1.419693
SB16.before.diet N_4 0.529055
SB18.before.diet N_4 -0.673702
SB28.before.diet N_4 0.640887
SB29.before.diet N_4 1.156200
SB34.before.diet N_4 0.155737
SB36.before.diet N_4 0.533256
SB39.before.diet N_4 0.144127
SB4.before.diet N_4 0.484035
SB41.before.diet N_4 -0.091338
SB43.before.diet N_4 0.093988
SB44.before.diet N_4 0.175682
SB5.before.diet N_4 1.104004
SB9.before.diet N_4 0.376181
SB11.before.diet N_8 -1.183520
SB16.before.diet N_8 0.536401
SB18.before.diet N_8 -0.566647
SB28.before.diet N_8 0.557117
SB29.before.diet N_8 1.001973
SB34.before.diet N_8 0.118742
SB36.before.diet N_8 0.360949
SB39.before.diet N_8 0.228735
SB4.before.diet N_8 0.606364
SB41.before.diet N_8 -0.066907
SB43.before.diet N_8 0.155191
SB44.before.diet N_8 0.317289
SB5.before.diet N_8 1.173709
SB9.before.diet N_8 0.330526
SB11.before.diet N_Inf -0.975270
SB16.before.diet N_Inf 0.479395
SB18.before.diet N_Inf -0.495743
SB28.before.diet N_Inf 0.487534
SB29.before.diet N_Inf 0.876868
SB34.before.diet N_Inf 0.108044
SB36.before.diet N_Inf 0.285830
SB39.before.diet N_Inf 0.240958
SB4.before.diet N_Inf 0.617598
SB41.before.diet N_Inf -0.056285
SB43.before.diet N_Inf 0.170861
SB44.before.diet N_Inf 0.359945
SB5.before.diet N_Inf 1.112370
SB9.before.diet N_Inf 0.289321
SB11.before.diet NE_0.25 -0.143304
SB16.before.diet NE_0.25 0.054996
SB18.before.diet NE_0.25 -0.242422
SB28.before.diet NE_0.25 -0.090101
SB29.before.diet NE_0.25 0.359633
SB34.before.diet NE_0.25 0.037737
SB36.before.diet NE_0.25 0.056439
SB39.before.diet NE_0.25 0.020870
SB4.before.diet NE_0.25 -0.006766
SB41.before.diet NE_0.25 0.001340
SB43.before.diet NE_0.25 0.037126
SB44.before.diet NE_0.25 -0.160489
SB5.before.diet NE_0.25 0.059361
SB9.before.diet NE_0.25 0.172967
SB11.before.diet NE_0.5 -0.334879
SB16.before.diet NE_0.5 0.115970
SB18.before.diet NE_0.5 -0.546258
SB28.before.diet NE_0.5 -0.016884
SB29.before.diet NE_0.5 0.545983
SB34.before.diet NE_0.5 0.080499
SB36.before.diet NE_0.5 0.163110
SB39.before.diet NE_0.5 0.042152
SB4.before.diet NE_0.5 -0.079186
SB41.before.diet NE_0.5 -0.011181
SB43.before.diet NE_0.5 0.108617
SB44.before.diet NE_0.5 -0.336368
SB5.before.diet NE_0.5 0.143273
SB9.before.diet NE_0.5 0.281402
SB11.before.diet NE_1 -0.768800
SB16.before.diet NE_1 0.201714
SB18.before.diet NE_1 -0.901111
SB28.before.diet NE_1 0.725872
SB29.before.diet NE_1 0.137789
SB34.before.diet NE_1 0.125041
SB36.before.diet NE_1 0.454230
SB39.before.diet NE_1 0.048144
SB4.before.diet NE_1 -0.273811
SB41.before.diet NE_1 -0.080641
SB43.before.diet NE_1 0.276519
SB44.before.diet NE_1 -0.419091
SB5.before.diet NE_1 0.356930
SB9.before.diet NE_1 0.052254
SB11.before.diet NE_2 -1.107198
SB16.before.diet NE_2 0.300257
SB18.before.diet NE_2 -0.383155
SB28.before.diet NE_2 1.315933
SB29.before.diet NE_2 -0.529068
SB34.before.diet NE_2 0.084025
SB36.before.diet NE_2 0.650254
SB39.before.diet NE_2 0.005466
SB4.before.diet NE_2 -0.222056
SB41.before.diet NE_2 -0.161018
SB43.before.diet NE_2 0.345928
SB44.before.diet NE_2 0.175627
SB5.before.diet NE_2 0.689064
SB9.before.diet NE_2 -0.419281
SB11.before.diet NE_4 -0.926943
SB16.before.diet NE_4 0.395463
SB18.before.diet NE_4 0.043747
SB28.before.diet NE_4 1.234416
SB29.before.diet NE_4 -0.868255
SB34.before.diet NE_4 0.038579
SB36.before.diet NE_4 0.406599
SB39.before.diet NE_4 0.102420
SB4.before.diet NE_4 0.049400
SB41.before.diet NE_4 -0.135040
SB43.before.diet NE_4 0.327812
SB44.before.diet NE_4 0.654159
SB5.before.diet NE_4 0.936688
SB9.before.diet NE_4 -0.513424
SB11.before.diet NE_8 -0.690006
SB16.before.diet NE_8 0.403135
SB18.before.diet NE_8 0.150962
SB28.before.diet NE_8 1.150541
SB29.before.diet NE_8 -1.022807
SB34.before.diet NE_8 0.001377
SB36.before.diet NE_8 0.233361
SB39.before.diet NE_8 0.188096
SB4.before.diet NE_8 0.170606
SB41.before.diet NE_8 -0.109396
SB43.before.diet NE_8 0.387075
SB44.before.diet NE_8 0.796058
SB5.before.diet NE_8 1.007388
SB9.before.diet NE_8 -0.559128
SB11.before.diet NE_Inf -0.481854
SB16.before.diet NE_Inf 0.346192
SB18.before.diet NE_Inf 0.221995
SB28.before.diet NE_Inf 1.080859

(1.4.1.4.2.1.21.2.2.2.1.1.1) Widget 346. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data for all pooled samples. Click to see HTML widget file in full window: ./1.4.1.4.2.1.21.2.2.2.1.1.1-3237971e6fdDynamic.Pivot.Table.html

(1.4.1.4.2.1.21.2.2.2.1.1.1) Widget 347. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data for all pooled samples. Click to see HTML widget file in full window: ./1.4.1.4.2.1.21.2.2.2.1.1.1-3232b1ea4c7Dynamic.Pivot.Table.html

(1.4.1.4.2.1.21.2.2.2.1.1.1) Table 338. Summary table. Data for all pooled samples. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.4.1.4.2.1.21.2.2.2.1.1.1-3234db31bac.1.4.1.4.2.1.21.2.2.csv

feature mean sd median incidence
N_4 0.22917 0.6641 0.27593 0.7857
N_8 0.25499 0.5945 0.32391 0.7857
N_Inf 0.25010 0.5243 0.28758 0.7857
N_2 0.15770 0.7906 0.20640 0.7143
NE_4 0.12469 0.6172 0.07591 0.7143
NE_8 0.15052 0.6174 0.17935 0.7143
NE_Inf 0.14510 0.6090 0.18990 0.6429
N_0 0.10452 0.7018 0.08523 0.6429
N_0.25 0.11585 0.8413 0.10832 0.6429
N_0.5 0.11584 0.9422 0.14015 0.6429
N_1 0.09983 0.9310 0.14707 0.7143
NE_0.25 0.01124 0.1477 0.02900 0.6429
NE_0.5 0.01116 0.2755 0.06133 0.5714
NE_1 -0.00464 0.4538 0.08865 0.6429
NE_2 0.05320 0.6039 0.04475 0.5714

(1.4.1.4.2.1.21.2.2.2.1.1.1) Figure 888. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. bar_stacked plot. Image file: plots/32331588208.svg.

(1.4.1.4.2.1.21.2.2.2.1.1.1) Figure 889. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/32318f0748.svg.

(1.4.1.4.2.1.21.2.2.2.1.1.1) Figure 890. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/3236b3fff78.svg.

(1.4.1.4.2.1.21.2.2.2.1.1.1) Figure 891. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/32345149b8f.svg.

(1.4.1.4.2.1.21.2.2.2.1.2) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.4.1.4.2.1.21.2.2.2.1.2.1) Figure 892. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/323175e6986.svg.

(1.4.1.4.2.1.21.2.2.2.1.2.1) Figure 893. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/323525c9172.svg.

(1.4.1.4.2.1.21.2.2.2.1.2.1) Figure 894. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data for all pooled samples. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/32315226a77.svg.

(1.4.1.4.2.1.21.2.3) Grouping variables Drug.Before.Diet
(1.4.1.4.2.1.21.2.4) Iterating over Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. profile sorting order
(1.4.1.4.2.1.21.2.4.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. profile sorting order: GeneSelector paired test ranking
(1.4.1.4.2.1.21.2.4.2) Iterating over dodged vs faceted bars

The same data are shown in multiple combinations of graphical representations. This is the same data, but each plot highlights slightly different aspects of it. It is not likely that you will need every plot - pick only what you need.

(1.4.1.4.2.1.21.2.4.2.1) faceted plots. Iterating over orientation and, optionally, scaling
(1.4.1.4.2.1.21.2.4.2.1.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.4.1.4.2.1.21.2.4.2.1.1.0) Table 339. Data table used for plots. Data grouped by Drug.Before.Diet. Showing only 200 first rows. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.4.1.4.2.1.21.2.4.2.1.1.0-32315e3daf0.1.4.1.4.2.1.21.2.4.csv

.record.id Drug.Before.Diet feature l2fc
SB11.before.diet DrugBefore_NO N_0 -0.491092
SB16.before.diet DrugBefore_YES N_0 0.126664
SB18.before.diet DrugBefore_NO N_0 -0.718013
SB28.before.diet DrugBefore_YES N_0 -0.593858
SB29.before.diet DrugBefore_YES N_0 2.027255
SB34.before.diet DrugBefore_YES N_0 0.123281
SB36.before.diet DrugBefore_YES N_0 0.121354
SB39.before.diet DrugBefore_YES N_0 0.034926
SB4.before.diet DrugBefore_YES N_0 0.436603
SB41.before.diet DrugBefore_YES N_0 0.049114
SB43.before.diet DrugBefore_YES N_0 -0.232318
SB44.before.diet DrugBefore_YES N_0 -0.477673
SB5.before.diet DrugBefore_NO N_0 0.171616
SB9.before.diet DrugBefore_NO N_0 0.885391
SB11.before.diet DrugBefore_NO N_0.25 -0.634338
SB16.before.diet DrugBefore_YES N_0.25 0.183082
SB18.before.diet DrugBefore_NO N_0.25 -0.959796
SB28.before.diet DrugBefore_YES N_0.25 -0.682825
SB29.before.diet DrugBefore_YES N_0.25 2.387025
SB34.before.diet DrugBefore_YES N_0.25 0.159472
SB36.before.diet DrugBefore_YES N_0.25 0.176759
SB39.before.diet DrugBefore_YES N_0.25 0.057172
SB4.before.diet DrugBefore_YES N_0.25 0.429689
SB41.before.diet DrugBefore_YES N_0.25 0.049882
SB43.before.diet DrugBefore_YES N_0.25 -0.196822
SB44.before.diet DrugBefore_YES N_0.25 -0.637641
SB5.before.diet DrugBefore_NO N_0.25 0.231494
SB9.before.diet DrugBefore_NO N_0.25 1.058680
SB11.before.diet DrugBefore_NO N_0.5 -0.825806
SB16.before.diet DrugBefore_YES N_0.5 0.246380
SB18.before.diet DrugBefore_NO N_0.5 -1.262687
SB28.before.diet DrugBefore_YES N_0.5 -0.609046
SB29.before.diet DrugBefore_YES N_0.5 2.573790
SB34.before.diet DrugBefore_YES N_0.5 0.200284
SB36.before.diet DrugBefore_YES N_0.5 0.282796
SB39.before.diet DrugBefore_YES N_0.5 0.080017
SB4.before.diet DrugBefore_YES N_0.5 0.357019
SB41.before.diet DrugBefore_YES N_0.5 0.036460
SB43.before.diet DrugBefore_YES N_0.5 -0.126778
SB44.before.diet DrugBefore_YES N_0.5 -0.813559
SB5.before.diet DrugBefore_NO N_0.5 0.315200
SB9.before.diet DrugBefore_NO N_0.5 1.167670
SB11.before.diet DrugBefore_NO N_1 -1.259650
SB16.before.diet DrugBefore_YES N_1 0.336035
SB18.before.diet DrugBefore_NO N_1 -1.616767
SB28.before.diet DrugBefore_YES N_1 0.132452
SB29.before.diet DrugBefore_YES N_1 2.164357
SB34.before.diet DrugBefore_YES N_1 0.241656
SB36.before.diet DrugBefore_YES N_1 0.575047
SB39.before.diet DrugBefore_YES N_1 0.088648
SB4.before.diet DrugBefore_YES N_1 0.161694
SB41.before.diet DrugBefore_YES N_1 -0.034658
SB43.before.diet DrugBefore_YES N_1 0.039783
SB44.before.diet DrugBefore_YES N_1 -0.897483
SB5.before.diet DrugBefore_NO N_1 0.526700
SB9.before.diet DrugBefore_NO N_1 0.939827
SB11.before.diet DrugBefore_NO N_2 -1.598588
SB16.before.diet DrugBefore_YES N_2 0.434624
SB18.before.diet DrugBefore_NO N_2 -1.100064
SB28.before.diet DrugBefore_YES N_2 0.722091
SB29.before.diet DrugBefore_YES N_2 1.495731
SB34.before.diet DrugBefore_YES N_2 0.200256
SB36.before.diet DrugBefore_YES N_2 0.775051
SB39.before.diet DrugBefore_YES N_2 0.047565
SB4.before.diet DrugBefore_YES N_2 0.212547
SB41.before.diet DrugBefore_YES N_2 -0.115683
SB43.before.diet DrugBefore_YES N_2 0.110412
SB44.before.diet DrugBefore_YES N_2 -0.302859
SB5.before.diet DrugBefore_NO N_2 0.856968
SB9.before.diet DrugBefore_NO N_2 0.469765
SB11.before.diet DrugBefore_NO N_4 -1.419693
SB16.before.diet DrugBefore_YES N_4 0.529055
SB18.before.diet DrugBefore_NO N_4 -0.673702
SB28.before.diet DrugBefore_YES N_4 0.640887
SB29.before.diet DrugBefore_YES N_4 1.156200
SB34.before.diet DrugBefore_YES N_4 0.155737
SB36.before.diet DrugBefore_YES N_4 0.533256
SB39.before.diet DrugBefore_YES N_4 0.144127
SB4.before.diet DrugBefore_YES N_4 0.484035
SB41.before.diet DrugBefore_YES N_4 -0.091338
SB43.before.diet DrugBefore_YES N_4 0.093988
SB44.before.diet DrugBefore_YES N_4 0.175682
SB5.before.diet DrugBefore_NO N_4 1.104004
SB9.before.diet DrugBefore_NO N_4 0.376181
SB11.before.diet DrugBefore_NO N_8 -1.183520
SB16.before.diet DrugBefore_YES N_8 0.536401
SB18.before.diet DrugBefore_NO N_8 -0.566647
SB28.before.diet DrugBefore_YES N_8 0.557117
SB29.before.diet DrugBefore_YES N_8 1.001973
SB34.before.diet DrugBefore_YES N_8 0.118742
SB36.before.diet DrugBefore_YES N_8 0.360949
SB39.before.diet DrugBefore_YES N_8 0.228735
SB4.before.diet DrugBefore_YES N_8 0.606364
SB41.before.diet DrugBefore_YES N_8 -0.066907
SB43.before.diet DrugBefore_YES N_8 0.155191
SB44.before.diet DrugBefore_YES N_8 0.317289
SB5.before.diet DrugBefore_NO N_8 1.173709
SB9.before.diet DrugBefore_NO N_8 0.330526
SB11.before.diet DrugBefore_NO N_Inf -0.975270
SB16.before.diet DrugBefore_YES N_Inf 0.479395
SB18.before.diet DrugBefore_NO N_Inf -0.495743
SB28.before.diet DrugBefore_YES N_Inf 0.487534
SB29.before.diet DrugBefore_YES N_Inf 0.876868
SB34.before.diet DrugBefore_YES N_Inf 0.108044
SB36.before.diet DrugBefore_YES N_Inf 0.285830
SB39.before.diet DrugBefore_YES N_Inf 0.240958
SB4.before.diet DrugBefore_YES N_Inf 0.617598
SB41.before.diet DrugBefore_YES N_Inf -0.056285
SB43.before.diet DrugBefore_YES N_Inf 0.170861
SB44.before.diet DrugBefore_YES N_Inf 0.359945
SB5.before.diet DrugBefore_NO N_Inf 1.112370
SB9.before.diet DrugBefore_NO N_Inf 0.289321
SB11.before.diet DrugBefore_NO NE_0.25 -0.143304
SB16.before.diet DrugBefore_YES NE_0.25 0.054996
SB18.before.diet DrugBefore_NO NE_0.25 -0.242422
SB28.before.diet DrugBefore_YES NE_0.25 -0.090101
SB29.before.diet DrugBefore_YES NE_0.25 0.359633
SB34.before.diet DrugBefore_YES NE_0.25 0.037737
SB36.before.diet DrugBefore_YES NE_0.25 0.056439
SB39.before.diet DrugBefore_YES NE_0.25 0.020870
SB4.before.diet DrugBefore_YES NE_0.25 -0.006766
SB41.before.diet DrugBefore_YES NE_0.25 0.001340
SB43.before.diet DrugBefore_YES NE_0.25 0.037126
SB44.before.diet DrugBefore_YES NE_0.25 -0.160489
SB5.before.diet DrugBefore_NO NE_0.25 0.059361
SB9.before.diet DrugBefore_NO NE_0.25 0.172967
SB11.before.diet DrugBefore_NO NE_0.5 -0.334879
SB16.before.diet DrugBefore_YES NE_0.5 0.115970
SB18.before.diet DrugBefore_NO NE_0.5 -0.546258
SB28.before.diet DrugBefore_YES NE_0.5 -0.016884
SB29.before.diet DrugBefore_YES NE_0.5 0.545983
SB34.before.diet DrugBefore_YES NE_0.5 0.080499
SB36.before.diet DrugBefore_YES NE_0.5 0.163110
SB39.before.diet DrugBefore_YES NE_0.5 0.042152
SB4.before.diet DrugBefore_YES NE_0.5 -0.079186
SB41.before.diet DrugBefore_YES NE_0.5 -0.011181
SB43.before.diet DrugBefore_YES NE_0.5 0.108617
SB44.before.diet DrugBefore_YES NE_0.5 -0.336368
SB5.before.diet DrugBefore_NO NE_0.5 0.143273
SB9.before.diet DrugBefore_NO NE_0.5 0.281402
SB11.before.diet DrugBefore_NO NE_1 -0.768800
SB16.before.diet DrugBefore_YES NE_1 0.201714
SB18.before.diet DrugBefore_NO NE_1 -0.901111
SB28.before.diet DrugBefore_YES NE_1 0.725872
SB29.before.diet DrugBefore_YES NE_1 0.137789
SB34.before.diet DrugBefore_YES NE_1 0.125041
SB36.before.diet DrugBefore_YES NE_1 0.454230
SB39.before.diet DrugBefore_YES NE_1 0.048144
SB4.before.diet DrugBefore_YES NE_1 -0.273811
SB41.before.diet DrugBefore_YES NE_1 -0.080641
SB43.before.diet DrugBefore_YES NE_1 0.276519
SB44.before.diet DrugBefore_YES NE_1 -0.419091
SB5.before.diet DrugBefore_NO NE_1 0.356930
SB9.before.diet DrugBefore_NO NE_1 0.052254
SB11.before.diet DrugBefore_NO NE_2 -1.107198
SB16.before.diet DrugBefore_YES NE_2 0.300257
SB18.before.diet DrugBefore_NO NE_2 -0.383155
SB28.before.diet DrugBefore_YES NE_2 1.315933
SB29.before.diet DrugBefore_YES NE_2 -0.529068
SB34.before.diet DrugBefore_YES NE_2 0.084025
SB36.before.diet DrugBefore_YES NE_2 0.650254
SB39.before.diet DrugBefore_YES NE_2 0.005466
SB4.before.diet DrugBefore_YES NE_2 -0.222056
SB41.before.diet DrugBefore_YES NE_2 -0.161018
SB43.before.diet DrugBefore_YES NE_2 0.345928
SB44.before.diet DrugBefore_YES NE_2 0.175627
SB5.before.diet DrugBefore_NO NE_2 0.689064
SB9.before.diet DrugBefore_NO NE_2 -0.419281
SB11.before.diet DrugBefore_NO NE_4 -0.926943
SB16.before.diet DrugBefore_YES NE_4 0.395463
SB18.before.diet DrugBefore_NO NE_4 0.043747
SB28.before.diet DrugBefore_YES NE_4 1.234416
SB29.before.diet DrugBefore_YES NE_4 -0.868255
SB34.before.diet DrugBefore_YES NE_4 0.038579
SB36.before.diet DrugBefore_YES NE_4 0.406599
SB39.before.diet DrugBefore_YES NE_4 0.102420
SB4.before.diet DrugBefore_YES NE_4 0.049400
SB41.before.diet DrugBefore_YES NE_4 -0.135040
SB43.before.diet DrugBefore_YES NE_4 0.327812
SB44.before.diet DrugBefore_YES NE_4 0.654159
SB5.before.diet DrugBefore_NO NE_4 0.936688
SB9.before.diet DrugBefore_NO NE_4 -0.513424
SB11.before.diet DrugBefore_NO NE_8 -0.690006
SB16.before.diet DrugBefore_YES NE_8 0.403135
SB18.before.diet DrugBefore_NO NE_8 0.150962
SB28.before.diet DrugBefore_YES NE_8 1.150541
SB29.before.diet DrugBefore_YES NE_8 -1.022807
SB34.before.diet DrugBefore_YES NE_8 0.001377
SB36.before.diet DrugBefore_YES NE_8 0.233361
SB39.before.diet DrugBefore_YES NE_8 0.188096
SB4.before.diet DrugBefore_YES NE_8 0.170606
SB41.before.diet DrugBefore_YES NE_8 -0.109396
SB43.before.diet DrugBefore_YES NE_8 0.387075
SB44.before.diet DrugBefore_YES NE_8 0.796058
SB5.before.diet DrugBefore_NO NE_8 1.007388
SB9.before.diet DrugBefore_NO NE_8 -0.559128
SB11.before.diet DrugBefore_NO NE_Inf -0.481854
SB16.before.diet DrugBefore_YES NE_Inf 0.346192
SB18.before.diet DrugBefore_NO NE_Inf 0.221995
SB28.before.diet DrugBefore_YES NE_Inf 1.080859

(1.4.1.4.2.1.21.2.4.2.1.1.1) Widget 348. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Stacked Bar Chart. Data grouped by Drug.Before.Diet. Click to see HTML widget file in full window: ./1.4.1.4.2.1.21.2.4.2.1.1.1-323252ab8aDynamic.Pivot.Table.html

(1.4.1.4.2.1.21.2.4.2.1.1.1) Widget 349. Dynamic Pivot Table link (drag and drop field names and pick averaging functions or plot types; click on fields or legend elements to filter values). Starting rendering is Table Barchart. Data grouped by Drug.Before.Diet. Click to see HTML widget file in full window: ./1.4.1.4.2.1.21.2.4.2.1.1.1-32327adb026Dynamic.Pivot.Table.html

(1.4.1.4.2.1.21.2.4.2.1.1.1) Table 340. Summary table. Data grouped by Drug.Before.Diet. Full dataset is also saved in a delimited text file (click to download and open e.g. in Excel) data/1.4.1.4.2.1.21.2.4.2.1.1.1-3233ce7da8.1.4.1.4.2.1.21.2.4.csv

feature Drug.Before.Diet mean sd median incidence
N_4 DrugBefore_NO -0.15330 1.1159 -0.14876 0.50
N_4 DrugBefore_YES 0.38216 0.3619 0.32986 0.90
N_8 DrugBefore_NO -0.06148 1.0318 -0.11806 0.50
N_8 DrugBefore_YES 0.38159 0.3054 0.33912 0.90
N_Inf DrugBefore_NO -0.01733 0.9159 -0.10321 0.50
N_Inf DrugBefore_YES 0.35707 0.2700 0.32289 0.90
N_2 DrugBefore_NO -0.34298 1.1903 -0.31515 0.50
N_2 DrugBefore_YES 0.35797 0.5240 0.20640 0.80
NE_4 DrugBefore_NO -0.11498 0.8061 -0.23484 0.50
NE_4 DrugBefore_YES 0.22056 0.5458 0.21512 0.80
NE_8 DrugBefore_NO -0.02270 0.7798 -0.20408 0.50
NE_8 DrugBefore_YES 0.21980 0.5738 0.21073 0.80
NE_Inf DrugBefore_NO 0.02167 0.7157 -0.12993 0.50
NE_Inf DrugBefore_YES 0.19448 0.5963 0.18990 0.70
N_0 DrugBefore_NO -0.03802 0.7221 -0.15974 0.50
N_0 DrugBefore_YES 0.16153 0.7245 0.08523 0.70
N_0.25 DrugBefore_NO -0.07599 0.9083 -0.20142 0.50
N_0.25 DrugBefore_YES 0.19258 0.8511 0.10832 0.70
N_0.5 DrugBefore_NO -0.15141 1.1026 -0.25530 0.50
N_0.5 DrugBefore_YES 0.22274 0.9125 0.14015 0.70
N_1 DrugBefore_NO -0.35247 1.2734 -0.36647 0.50
N_1 DrugBefore_YES 0.28075 0.7643 0.14707 0.80
NE_0.25 DrugBefore_NO -0.03835 0.1887 -0.04197 0.50
NE_0.25 DrugBefore_YES 0.03108 0.1346 0.02900 0.70
NE_0.5 DrugBefore_NO -0.11412 0.3908 -0.09580 0.50
NE_0.5 DrugBefore_YES 0.06127 0.2212 0.06133 0.60
NE_1 DrugBefore_NO -0.31518 0.6153 -0.35827 0.50
NE_1 DrugBefore_YES 0.11958 0.3336 0.13142 0.70
NE_2 DrugBefore_NO -0.30514 0.7418 -0.40122 0.25
NE_2 DrugBefore_YES 0.19653 0.5133 0.12983 0.70

(1.4.1.4.2.1.21.2.4.2.1.1.1) Figure 895. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar_stacked plot. Image file: plots/3237c8821e3.svg.

(1.4.1.4.2.1.21.2.4.2.1.1.1) Figure 896. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/323285dae5a.svg.

(1.4.1.4.2.1.21.2.4.2.1.1.1) Figure 897. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/32373f001f5.svg.

(1.4.1.4.2.1.21.2.4.2.1.1.1) Figure 898. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/3237e8ad5b6.svg.

(1.4.1.4.2.1.21.2.4.2.1.2) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.4.1.4.2.1.21.2.4.2.1.2.1) Figure 899. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/32365ee81bb.svg.

(1.4.1.4.2.1.21.2.4.2.1.2.1) Figure 900. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/3234b5eb092.svg.

(1.4.1.4.2.1.21.2.4.2.1.2.1) Figure 901. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/32347e11d95.svg.

(1.4.1.4.2.1.21.2.4.2.2) dodged plots. Iterating over orientation and, optionally, scaling
(1.4.1.4.2.1.21.2.4.2.2.1) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in original orientation, Y axis SQRT scaled. Iterating over plot geometry

(1.4.1.4.2.1.21.2.4.2.2.1.1) Figure 902. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/3233f4696b4.svg.

(1.4.1.4.2.1.21.2.4.2.2.1.1) Figure 903. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/32334403d61.svg.

(1.4.1.4.2.1.21.2.4.2.2.1.1) Figure 904. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/323a43c20a.svg.

(1.4.1.4.2.1.21.2.4.2.2.2) Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Plot is in flipped orientation, Y axis not scaled. Iterating over plot geometry

(1.4.1.4.2.1.21.2.4.2.2.2.1) Figure 905. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. bar (sample median) plot. Image file: plots/3233cc1091a.svg.

(1.4.1.4.2.1.21.2.4.2.2.2.1) Figure 906. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. violin plot. Image file: plots/3236c6338a8.svg.

(1.4.1.4.2.1.21.2.4.2.2.2.1) Figure 907. Log2 fold change in abundance between paired samples. Samples are paired according to attribute SubjectID, resulting in 14 pairs. When fold change or difference is computed, this is done as 'before.diet by after.diet'. Data grouped by Drug.Before.Diet. Sorting order of features is GeneSelector paired test ranking. boxplot plot. Image file: plots/323150b966f.svg.

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